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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ), 'gf_id' => 'HOM05D001097', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001097' ), 'data_identifier' => 'HOM05D001097', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001097', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '558', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p07820' => 'bna', 'A03p12630' => 'bna', 'A03p57770' => 'bna', 'A07p01870' => 'bna', 'A08p20220' => 'bna', 'A09p12960' => 'bna', 'A09p58640' => 'bna', 'Aa31LG2G20200' => 'aar', 'Aa31LG3G13530' => 'aar', 'Aa31LG8G15850' => 'aar', 'Aa31LG8G17810' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.191' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2885' => 'aag', 'Actinidia04114' => 'ach', 'Actinidia08018' => 'ach', 'Actinidia12467' => 'ach', 'Actinidia24019' => 'ach', 'Actinidia30492' => 'ach', 'Actinidia33317' => 'ach', 'Ah.01g014430' => 'amhyb', 'Ah.09g229660' => 'amhyb', 'AL3G52120' => 'aly', 'AL3G54170' => 'aly', 'AL7G21810' => 'aly', 'AL7G24470' => 'aly', 'AL8G33720' => 'aly', 'Aqoxy1G03914' => 'aox', 'Aqoxy7G02472' => 'aox', 'Aqoxy7G03182' => 'aox', 'arahy.Tifrunner.gnm1.ann1.38SNYI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3RRA3K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.44E5Z5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5NP3NY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7A44NB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8FYK6V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8LQ7VC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D0UR3R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7M3GH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HDPS7V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IB5R27' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JF121L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JIE8QH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K3ERDD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.M2AJRY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MNM1D4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y4MS9C' => 'arhy', 'AT2G18730' => 'ath', 'AT2G20900' => 'ath', 'AT4G28130' => 'ath', 'AT4G30340' => 'ath', 'AT5G57690' => 'ath', 'ATR0580G396' => 'atr', 'ATR0693G405' => 'atr', 'Atru.chr2.2923' => 'acertr', 'Atru.chr6.3085' => 'acertr', 'Atru.chr7.560' => 'acertr', 'AUR62032760' => 'cqu', 'AUR62037117' => 'cqu', 'AUR62039981' => 'cqu', 'AUR62040290' => 'cqu', 'BcaB03g16665' => 'bca', 'BcaB05g22361' => 'bca', 'BcaB07g31582' => 'bca', 'BcaB07g31646' => 'bca', 'BcaB08g34949' => 'bca', 'BcaC04g22781' => 'bca', 'BcaC04g22887' => 'bca', 'BcaC06g32644' => 'bca', 'BcaC06g36457' => 'bca', 'BcaC07g41185' => 'bca', 'BcaC09g51816' => 'bca', 'BcaNung02997' => 'bca', 'BolC1t00859H' => 'bol', 'BolC3t13926H' => 'bol', 'BolC7t40791H' => 'bol', 'BolC7t46072H' => 'bol', 'BolC8t48738H' => 'bol', 'BolC8t51756H' => 'bol', 'BolC9t54318H' => 'bol', 'BolC9t54443H' => 'bol', 'BraA01t00726Z' => 'bra', 'BraA03t10578Z' => 'bra', 'BraA03t14843Z' => 'bra', 'BraA07t27988Z' => 'bra', 'BraA08t33981Z' => 'bra', 'BraA09t36849Z' => 'bra', 'BraA09t36942Z' => 'bra', 'BraA09t41250Z' => 'bra', 'C01p08720' => 'bna', 'C03p14840' => 'bna', 'C07p04000' => 'bna', 'C07p55950' => 'bna', 'C08p10650' => 'bna', 'C08p41930' => 'bna', 'C09p14200' => 'bna', 'C09p15350' => 'bna', 'CAN.G1280.47' => 'can', 'CAN.G157.3' => 'can', 'CAN.G168.17' => 'can', 'CAN.G366.2' => 'can', 'CAN.G508.1' => 'can', 'CAN.G584.31' => 'can', 'CAN.G594.10' => 'can', 'CANSAT11G0389' => 'cansat', 'CANSAT11G1498' => 'cansat', 'CANSAT64G0495' => 'cansat', 'CARHR109320' => 'chi', 'CARHR111630' => 'chi', 'CARHR235840' => 'chi', 'CARHR238240' => 'chi', 'Carub.0003s3300' => 'cru', 'Carub.0003s3557' => 'cru', 'Carub.0007s1026' => 'cru', 'Carub.0007s1264' => 'cru', 'Carub.0008s1820' => 'cru', 'Ca_01545_v3' => 'car', 'Ca_01943_v3' => 'car', 'Ca_14203_v3' => 'car', 'Ca_20708_v3' => 'car', 'Ca_21192_v3' => 'car', 'Ca_22903_v3' => 'car', 'Ca_29829_v3' => 'car', 'CBR_g16863' => 'cbr', 'CBR_g17898' => 'cbr', 'CBR_g52053' => 'cbr', 'Cc05_g06060' => 'ccan', 'Cc06_g13770' => 'ccan', 'CDE02G2230' => 'cde', 'CDE04G1627' => 'cde', 'CDE05G0735' => 'cde', 'CDE05G1105' => 'cde', 'CDE05G1159' => 'cde', 'CDE05G2362' => 'cde', 'CDE05G2941' => 'cde', 'Cfa013535' => 'cfa', 'Cfa014524' => 'cfa', 'Cfa020493' => 'cfa', 'Ciclev10007969m.g' => 'ccl', 'Ciclev10008147m.g' => 'ccl', 'Ciclev10015037m.g' => 'ccl', 'CiPaw.04G122200' => 'cil', 'CiPaw.07G187900' => 'cil', 'CiPaw.08G039200' => 'cil', 'CiPaw.11G178000' => 'cil', 'ClCG02G017290' => 'cla', 'ClCG06G012980' => 'cla', 'ClCG10G006400' => 'cla', 'ClCG11G012270' => 'cla', 'COL.COLO4_09496' => 'col', 'COL.COLO4_13660' => 'col', 'COL.COLO4_16084' => 'col', 'Cpa.g.c43453' => 'cpa', 'Cpa.g.sc12.23' => 'cpa', 'Cpa.g.sc34.77' => 'cpa', 'Cpa.g.sc34.78' => 'cpa', 'Cpa.g.sc3663.1' => 'cpa', 'Cpa.g.sc450.4' => 'cpa', 'Cre07.g325550' => 'cre', 'CsaV3_1G029550' => 'csa', 'CsaV3_2G008260' => 'csa', 'CsaV3_3G005860' => 'csa', 'CsaV3_6G012360' => 'csa', 'CSS0010628' => 'camsi', 'CSS0013478' => 'camsi', 'CSS0013898' => 'camsi', 'CSS0038386' => 'camsi', 'CSS0038759' => 'camsi', 'CSS0038785' => 'camsi', 'CSS0043901' => 'camsi', 'CSS0046431' => 'camsi', 'CSS0049168' => 'camsi', 'DCAR_008696' => 'dca', 'DCAR_009714' => 'dca', 'DCAR_009904' => 'dca', 'DCAR_012972' => 'dca', 'DCAR_014391' => 'dca', 'DCAR_014713' => 'dca', 'Dinv08352' => 'din', 'Dinv13830' => 'din', 'Dinv41290' => 'din', 'Dinv42766' => 'din', 'Dinv43337' => 'din', 'Duzib052G0122' => 'dzi', 'Duzib052G0381' => 'dzi', 'Duzib132G0776' => 'dzi', 'Duzib132G0884' => 'dzi', 'Duzib132G1050' => 'dzi', 'Duzib150G1091' => 'dzi', 'Duzib168G1731' => 'dzi', 'Duzib187G1922' => 'dzi', 'Duzib213G0301' => 'dzi', 'Duzib213G0988' => 'dzi', 'ECA234G0028' => 'eca', 'ECA234G4548' => 'eca', 'ECA240G0700' => 'eca', 'ECA240G3573' => 'eca', 'ECA246G4019' => 'eca', 'EL10Ac8g18257' => 'bvu', 'EL10Ac9g20730' => 'bvu', 'Eucgr.A01773' => 'egr', 'Eucgr.C00196' => 'egr', 'Eucgr.F01070' => 'egr', 'Eucgr.F03363' => 'egr', 'Eucgr.K00904' => 'egr', 'FAN02G1543' => 'fan', 'FAN02G4332' => 'fan', 'FAN05G0750' => 'fan', 'FAN05G2604' => 'fan', 'FAN07G0239' => 'fan', 'FAN09G2147' => 'fan', 'FAN11G2028' => 'fan', 'FAN12G1684' => 'fan', 'FAN14G1277' => 'fan', 'FAN14G4144' => 'fan', 'FAN17G0171' => 'fan', 'FAN21G3522' => 'fan', 'FAN22G0226' => 'fan', 'FAN25G0920' => 'fan', 'FvH4_3g21140' => 'fve', 'FvH4_4g08400' => 'fve', 'FvH4_6g29230' => 'fve', 'FvH4_6g44410' => 'fve', 'Glyma.04G143000' => 'gma', 'Glyma.06G223900' => 'gma', 'Glyma.06G254900' => 'gma', 'Glyma.06G299200' => 'gma', 'Glyma.12G146700' => 'gma', 'Glyma.12G200100' => 'gma', 'Glyma.13G093100' => 'gma', 'Glyma.13G302166' => 'gma', 'Glyma.17G067400' => 'gma', 'Gohir.A01G069500' => 'ghi', 'Gohir.A05G006300' => 'ghi', 'Gohir.A08G235000' => 'ghi', 'Gohir.A12G136500' => 'ghi', 'Gohir.A13G057300' => 'ghi', 'Gohir.A13G057400' => 'ghi', 'Gohir.A13G211400' => 'ghi', 'Gohir.D01G056850' => 'ghi', 'Gohir.D05G007200' => 'ghi', 'Gohir.D08G255400' => 'ghi', 'Gohir.D12G140500' => 'ghi', 'Gohir.D13G064700' => 'ghi', 'Gohir.D13G215400' => 'ghi', 'Gorai.002G077100' => 'gra', 'Gorai.004G272500' => 'gra', 'Gorai.008G151800' => 'gra', 'Gorai.009G007300' => 'gra', 'Gorai.013G073400' => 'gra', 'Gorai.013G245800' => 'gra', 'GSVIVG01003084001' => 'vvi', 'GSVIVG01003085001' => 'vvi', 'GSVIVG01003086001' => 'vvi', 'GSVIVG01003089001' => 'vvi', 'GSVIVG01003096001' => 'vvi', 'GSVIVG01011328001' => 'vvi', 'GSVIVG01013336001' => 'vvi', 'GSVIVG01013349001' => 'vvi', 'GSVIVG01014451001' => 'vvi', 'GSVIVG01015695001' => 'vvi', 'GSVIVG01026695001' => 'vvi', 'GSVIVG01029102001' => 'vvi', 'GSVIVG01029800001' => 'vvi', 'GSVIVG01029819001' => 'vvi', 'GSVIVG01029989001' => 'vvi', 'HanXRQChr03g0065011' => 'han', 'HanXRQChr05g0136581' => 'han', 'HanXRQChr05g0140541' => 'han', 'HanXRQChr05g0158951' => 'han', 'HanXRQChr08g0211451' => 'han', 'HanXRQChr08g0234251' => 'han', 'HanXRQChr10g0307931' => 'han', 'Haze_09545' => 'cav', 'Haze_13068' => 'cav', 'Haze_22139' => 'cav', 'Haze_22141' => 'cav', 'Hma1.2p1_0156F.1_g068810' => 'hma', 'Hma1.2p1_0921F.1_g236650' => 'hma', 'Hma1.2p1_2873F.1_g329730' => 'hma', 'HPP92_001611' => 'vpl', 'HPP92_015842' => 'vpl', 'HPP92_016547' => 'vpl', 'HPP92_021955' => 'vpl', 'Hund01228' => 'sun', 'Hund09003' => 'sun', 'Hund26383' => 'sun', 'Lalb_Chr03g0029111' => 'lal', 'Lalb_Chr03g0030361' => 'lal', 'Lalb_Chr07g0180181' => 'lal', 'Lalb_Chr11g0072361' => 'lal', 'Lalb_Chr13g0300431' => 'lal', 'Lalb_Chr14g0366571' => 'lal', 'Lalb_Chr22g0356301' => 'lal', 'Lj1A737T47' => 'lonja', 'Lj1A854T36' => 'lonja', 'Lj3g0013595' => 'lja', 'Lj3g0017358' => 'lja', 'Lj3g0025692' => 'lja', 'Lj4g0006942' => 'lja', 'Lj6g0023559' => 'lja', 'Lj7A469G53' => 'lonja', 'Lj8A118T38' => 'lonja', 'Lj9C730T8' => 'lonja', 'Lsat_1_v5_gn_0_25161' => 'lsa', 'Lsat_1_v5_gn_4_68721' => 'lsa', 'Lsat_1_v5_gn_5_6620' => 'lsa', 'Lsat_1_v5_gn_5_87621' => 'lsa', 'Lsat_1_v5_gn_7_51280' => 'lsa', 'Lsat_1_v5_gn_8_65080' => 'lsa', 'Manes.03G117400' => 'mes', 'Manes.06G028700' => 'mes', 'Manes.13G152500' => 'mes', 'Manes.14G150000' => 'mes', 'Manes.15G082000' => 'mes', 'Mapoly0002s0026' => 'mpo', 'Mapoly0026s0082' => 'mpo', 'MBI02_g36163_MAGBIO' => 'mbi', 'MBI02_g37322_MAGBIO' => 'mbi', 'MBI05_g19991_MAGBIO' => 'mbi', 'MBI14_g24283_MAGBIO' => 'mbi', 'MBI15_g00657_MAGBIO' => 'mbi', 'MBI18_g27694_MAGBIO' => 'mbi', 'MD02G1290600' => 'mdo', 'MD03G1019400' => 'mdo', 'MD09G1097300' => 'mdo', 'MD11G1235100' => 'mdo', 'MD13G1262800' => 'mdo', 'MD16G1264500' => 'mdo', 'MD17G1085600' => 'mdo', 'MD17G1085700' => 'mdo', 'MD17G1216600' => 'mdo', 'Medtr0026s0160' => 'mtr', 'Medtr2g089785' => 'mtr', 'Medtr4g045973' => 'mtr', 'Medtr4g129070' => 'mtr', 'Medtr8g464780' => 'mtr', 'MELO3C004041.2' => 'cme', 'MELO3C013540.2' => 'cme', 'MELO3C016566.2' => 'cme', 'MELO3C016568.2' => 'cme', 'MELO3C017511.2' => 'cme', 'MELO3C024813.2' => 'cme', 'MELO3C032193.2' => 'cme', 'Migut.G00819' => 'egut', 'Migut.G00987' => 'egut', 'Migut.H01013' => 'egut', 'Migut.H01897' => 'egut', 'Migut.J01438' => 'egut', 'Migut.K00265' => 'egut', 'Migut.M00340' => 'egut', 'Migut.O00939' => 'egut', 'MSTRG.12934' => 'ama', 'MSTRG.14175' => 'ama', 'MSTRG.6525' => 'ama', 'Nitab4.5_0000092g0310' => 'nta', 'Nitab4.5_0000244g0080' => 'nta', 'Nitab4.5_0000769g0110' => 'nta', 'Nitab4.5_0001019g0080' => 'nta', 'Nitab4.5_0001212g0010' => 'nta', 'Nitab4.5_0001386g0070' => 'nta', 'Nitab4.5_0003195g0040' => 'nta', 'Nitab4.5_0004610g0020' => 'nta', 'Nitab4.5_0006651g0020' => 'nta', 'Nitab4.5_0009771g0010' => 'nta', 'Nn1g03857' => 'nnu', 'Nn1g06800' => 'nnu', 'Nn2g12604' => 'nnu', 'Nn6g31692' => 'nnu', 'Nn8g40298' => 'nnu', 'Oeu002536.2' => 'oeu', 'Oeu002537.1' => 'oeu', 'Oeu019369.3' => 'oeu', 'Oeu019370.1' => 'oeu', 'Oeu024858.2' => 'oeu', 'Oeu037257.1' => 'oeu', 'Oeu046195.2' => 'oeu', 'Oeu058833.1' => 'oeu', 'Os01g0783200' => 'osa', 'Os02g0787800' => 'osa', 'Os04g0634700' => 'osa', 'Os08g0178700' => 'osa', 'Peaxi162Scf00000g00776' => 'pax', 'Peaxi162Scf00007g00252' => 'pax', 'Peaxi162Scf00297g01024' => 'pax', 'Peaxi162Scf00608g00211' => 'pax', 'Peaxi162Scf00942g00312' => 'pax', 'PGR031G0285' => 'pgr', 'PGR042G2664' => 'pgr', 'PGR044G0708' => 'pgr', 'PGR083G0940' => 'pgr', 'PGR142G1806' => 'pgr', 'PGR142G3467' => 'pgr', 'PGSC0003DMG400007293' => 'stu', 'PGSC0003DMG400015138' => 'stu', 'PGSC0003DMG400019023' => 'stu', 'PGSC0003DMG400021660' => 'stu', 'PGSC0003DMG400023066' => 'stu', 'PGSC0003DMG400027278' => 'stu', 'PGSC0003DMG400027456' => 'stu', 'PGSC0003DMG400037775' => 'stu', 'PGSC0003DMG400045089' => 'stu', 'PGSC0003DMG401018380' => 'stu', 'PGSC0003DMG402018380' => 'stu', 'Phvul.001G097601' => 'pvu', 'Phvul.003G149800' => 'pvu', 'Phvul.005G101800' => 'pvu', 'Phvul.005G108700' => 'pvu', 'Phvul.009G206100' => 'pvu', 'Phvul.009G206200' => 'pvu', 'Phvul.011G110600' => 'pvu', 'Phvul.011G155800' => 'pvu', 'Potri.001G408500' => 'ptr', 'Potri.006G172400' => 'ptr', 'Potri.006G174700' => 'ptr', 'Potri.013G148500' => 'ptr', 'Potri.018G096700' => 'ptr', 'Pp3c15_10130' => 'ppa', 'Pp3c3_10140' => 'ppa', 'Pp3c4_31990' => 'ppa', 'Pp3c9_3890' => 'ppa', 'PRCOL_00000522' => 'pco', 'PRCOL_00002791' => 'pco', 'Prupe.1G094900' => 'ppe', 'Prupe.3G175800' => 'ppe', 'Prupe.3G176000' => 'ppe', 'Prupe.3G176200' => 'ppe', 'Prupe.3G228600' => 'ppe', 'Prupe.4G191900' => 'ppe', 'Prupe.8G030500' => 'ppe', 'Psat1g023640' => 'psa', 'Psat4g010960' => 'psa', 'Psat4g140840' => 'psa', 'Psat5g269000' => 'psa', 'Psat7g149720' => 'psa', 'PSO063G1353' => 'pso', 'PSO063G3238' => 'pso', 'PSO063G4044' => 'pso', 'PSO079G0050' => 'pso', 'PSO423G0038' => 'pso', 'PSO423G0215' => 'pso', 'PSO541G2682' => 'pso', 'PSO675G8269' => 'pso', 'PSO782G0074' => 'pso', 'PSO782G0698' => 'pso', 'PSO782G4990' => 'pso', 'QL02p096127' => 'qlo', 'QL08p017299' => 'qlo', 'QL08p036954' => 'qlo', 'RcHm_v2.0_Chr2g0132201' => 'rch', 'RcHm_v2.0_Chr2g0151881' => 'rch', 'RcHm_v2.0_Chr2g0151901' => 'rch', 'RcHm_v2.0_Chr2g0151921' => 'rch', 'RcHm_v2.0_Chr2g0151941' => 'rch', 'RcHm_v2.0_Chr2g0152191' => 'rch', 'RcHm_v2.0_Chr2g0152201' => 'rch', 'RcHm_v2.0_Chr2g0161401' => 'rch', 'RcHm_v2.0_Chr4g0404101' => 'rch', 'RcHm_v2.0_Chr5g0036201' => 'rch', 'Rhsim01G0009300' => 'rsi', 'Rhsim03G0262300' => 'rsi', 'Rhsim06G0153200' => 'rsi', 'Rhsim06G0192200' => 'rsi', 'RhsimUnG0134800' => 'rsi', 'Sabra06G0133700' => 'sbr', 'Sabra13G0119800' => 'sbr', 'Sabra16G0271400' => 'sbr', 'Sabra18G0083900' => 'sbr', 'SalBow1G3736' => 'sbo', 'SalBow1G5835' => 'sbo', 'SalBow6G5643' => 'sbo', 'SalBow7G3823' => 'sbo', 'SalBow7G4026' => 'sbo', 'Sc06g0009330' => 'sci', 'Sc08g0005590' => 'sci', 'Sc12g0002680' => 'sci', 'Sc14g0001150' => 'sci', 'Sed0001255' => 'sed', 'Sed0018932' => 'sed', 'Sed0019832' => 'sed', 'Sed0022241' => 'sed', 'Sed0022364' => 'sed', 'Sed0027700' => 'sed', 'SEGI_04617' => 'sgi', 'SEGI_09507' => 'sgi', 'SEGI_14708' => 'sgi', 'SEGI_27649' => 'sgi', 'SEGI_29638' => 'sgi', 'SGA_v2.0_scaffold242G44240' => 'sas', 'SGA_v2.0_scaffold49G18313' => 'sas', 'SGA_v2.0_scaffold66G22491' => 'sas', 'SGA_v2.0_scaffold70G23456' => 'sas', 'SGA_v2.0_scaffold9G04962' => 'sas', 'SHI02962' => 'shi', 'SHI10479' => 'shi', 'SMO203G0186' => 'smo', 'SMO236G0133' => 'smo', 'SMO353G0307' => 'smo', 'Solyc06g009270.3' => 'sly', 'Solyc07g006580.3' => 'sly', 'Solyc07g054830.4' => 'sly', 'Solyc10g008640.3' => 'sly', 'Solyc12g005380.3' => 'sly', 'Sopen06g004010' => 'spe', 'Sopen07g002660' => 'spe', 'Sopen07g028740' => 'spe', 'Sopen10g004440' => 'spe', 'Sopen12g001350' => 'spe', 'Sp2g09760' => 'spa', 'Sp3g32220' => 'spa', 'Sp3g34170' => 'spa', 'Sp6g19380' => 'spa', 'Sp7g26080' => 'spa', 'Sp7g28210' => 'spa', 'TAR383G0805' => 'tar', 'TAR626G0733' => 'tar', 'TAR626G1617' => 'tar', 'TAR627G0769' => 'tar', 'THA.LOC104803510' => 'tha', 'THA.LOC104813532' => 'tha', 'THA.LOC104814488' => 'tha', 'THA.LOC104819982' => 'tha', 'Thecc.02G170300' => 'tca', 'Thecc.07G069300' => 'tca', 'Thecc.09G163800' => 'tca', 'Thhalv10001971m.g' => 'esa', 'Thhalv10013375m.g' => 'esa', 'Thhalv10022666m.g' => 'esa', 'Thhalv10025025m.g' => 'esa', 'Thhalv10027135m.g' => 'esa', 'TPR.G19422' => 'tpr', 'TPR.G21654' => 'tpr', 'TPR.G21656' => 'tpr', 'TPR.G5342' => 'tpr', 'TPR.G9528' => 'tpr', 'TWI34G0095' => 'twi', 'TWI36G0169' => 'twi', 'TWI38G1902' => 'twi', 'TWI63G0969' => 'twi', 'unitig_0.g2253' => 'ugi', 'unitig_0.g2254' => 'ugi', 'unitig_52.g17561' => 'ugi', 'unitig_62.g23495' => 'ugi', 'unitig_899.g15250' => 'ugi', 'vmacro04978' => 'vma', 'vmacro09294' => 'vma', 'vmacro11806' => 'vma', 'vmacro12256' => 'vma', 'VMungo1080G1049' => 'vmu', 'VMungo1127G1117' => 'vmu', 'VMungo1127G1772' => 'vmu', 'VMungo1215G1905' => 'vmu', 'VMungo1309G0511' => 'vmu', 'VMungo1309G3083' => 'vmu', 'Zm00001eb069350' => 'zma', 'Zm00001eb151400' => 'zma', 'Zm00001eb257410' => 'zma', 'Zm00001eb412830' => 'zma', 'Zm00001eb413000' => 'zma' ) $gf_id = 'HOM05D001097' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001097' ) $data_identifier = 'HOM05D001097' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 15, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 6, 'amhyb' => (int) 2, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 4, 'bca' => (int) 12, 'bol' => (int) 8, 'bra' => (int) 8, 'can' => (int) 7, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 7, 'cbr' => (int) 3, 'ccan' => (int) 2, 'cde' => (int) 7, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 3, 'cpa' => (int) 6, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 5, 'dzi' => (int) 10, 'eca' => (int) 5, 'bvu' => (int) 2, 'egr' => (int) 5, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 15, 'han' => (int) 7, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 3, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 5, 'lsa' => (int) 6, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 7, 'egut' => (int) 8, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 6, 'stu' => (int) 11, 'pvu' => (int) 8, 'ptr' => (int) 5, 'ppa' => (int) 4, 'pco' => (int) 2, 'ppe' => (int) 7, 'psa' => (int) 5, 'pso' => (int) 11, 'qlo' => (int) 3, 'rch' => (int) 10, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 5, 'sci' => (int) 4, 'sed' => (int) 6, 'sgi' => (int) 5, 'sas' => (int) 5, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 5, 'twi' => (int) 4, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb413000' $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